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| Status |
Public on Jul 28, 2006 |
| Title |
colorectal tumor P2000 |
| Sample type |
RNA |
| |
|
| Source name |
cololrectal tumor
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| Organism |
Homo sapiens |
| Characteristics |
tumor tissue
|
| Extracted molecule |
total RNA |
| Extraction protocol |
colon tumor samples.Total RNA extracted from the fresh frozen tumors using Trizol reagent (GibcoBRL) an purified using RNeasy kit (Qiagen).
|
| Label |
biotin
|
| Label protocol |
Approximately 8 µg of total RNA was processed to produce biotinylated cRNA targets.
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| |
|
| Hybridization protocol |
standard Affymetrix procedures
|
| Scan protocol |
standard Affymetrix procedures
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| Description |
serrated colorectal tumor, non-mucinous, Dukes Stage b, MSS, no cancer in the family, male, Distal Location , Tumor Grade 2
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| Data processing |
Affymetrix Microarray Suite version 5.0
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| |
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| Submission date |
Jan 13, 2006 |
| Last update date |
Jul 28, 2006 |
| Contact name |
Antti Kokko |
| Organization name |
University of Helsinki
|
| Department |
Dept of Medical Genetics
|
| Lab |
Tumorigenesis group
|
| Street address |
POBOX 63 (Haartmaninkatu 8)
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| City |
Helsinki |
| ZIP/Postal code |
00014 University of Helsinki |
| Country |
Finland |
| |
|
| Platform ID |
GPL96 |
| Series (1) |
| GSE4045 |
Classification of serrated colorectal tumors |
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| Data table header descriptions |
| ID_REF |
|
| VALUE |
MAS5-calculated Signal intensity |
| ABS_CALL |
the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC) |
| DETECTION P-VALUE |
'detection p-value', p-value that indicates the significance level of the detection call |
| Data table |
| ID_REF |
VALUE |
ABS_CALL |
DETECTION P-VALUE |
| AFFX-BioB-5_at |
116.8 |
P |
0.006187 |
| AFFX-BioB-M_at |
158.8 |
P |
0.000509 |
| AFFX-BioB-3_at |
89.2 |
P |
0.000297 |
| AFFX-BioC-5_at |
309.7 |
P |
0.00039 |
| AFFX-BioC-3_at |
235.7 |
P |
0.000127 |
| AFFX-BioDn-5_at |
263.4 |
P |
0.000081 |
| AFFX-BioDn-3_at |
1922.4 |
P |
0.000169 |
| AFFX-CreX-5_at |
3298.7 |
P |
0.000044 |
| AFFX-CreX-3_at |
3726.9 |
P |
0.000044 |
| AFFX-DapX-5_at |
10.9 |
A |
0.175328 |
| AFFX-DapX-M_at |
26.6 |
P |
0.026111 |
| AFFX-DapX-3_at |
4.3 |
A |
0.60308 |
| AFFX-LysX-5_at |
8.4 |
A |
0.156732 |
| AFFX-LysX-M_at |
18.8 |
A |
0.313723 |
| AFFX-LysX-3_at |
10.3 |
P |
0.042962 |
| AFFX-PheX-5_at |
2.2 |
A |
0.834139 |
| AFFX-PheX-M_at |
2.4 |
A |
0.749204 |
| AFFX-PheX-3_at |
13.8 |
A |
0.39692 |
| AFFX-ThrX-5_at |
3.6 |
A |
0.58862 |
| AFFX-ThrX-M_at |
16 |
A |
0.340661 |
Total number of rows: 22283
Table truncated, full table size 580 Kbytes.
| Supplementary file |
Size |
Download |
File type/resource |
| GSM92247.CEL.gz |
3.4 Mb |
(ftp)(http) |
CEL |
| GSM92247.EXP.gz |
485 b |
(ftp)(http) |
EXP |
| GSM92247.RPT.gz |
980 b |
(ftp)(http) |
RPT |
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